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This regulatory network was inferred from the input dataset. The miRNAs and mRNAs are presented as round and rectangle nodes respectively. The numerical value popped up upon mouse over the gene node is the log2 transformed fold-change of the gene expression between the two groups. All of the nodes are clickable, and the detailed information of the miRNAs/mRNAs and related cancer pathway will be displayed in another window. The edges between nodes are supported by both interactions (predicted or experimentally verified) and correlations learnt from cancer dataset. The numerical value popped up upon mouse over the edge is the correlation beat value (effect size) between the two nodes. The experimental evidences of the edges reported in previous cancer studies are highlighted by red/orange color. All of these information can be accessed by the "mouse-over" action. This network shows a full map of the miRNA-mRNA regulation of the input gene list(s), and the hub miRNAs (with the high network degree/betweenness centrality) would be the potential cancer drivers or tumor suppressors. The full result table can be accessed in the "Regulations" tab.

"miRNACancerMAP" is also a network visualization tool for users to draw their regulatory network by personal customization. Users can set the complexity of the network by limiting the number of nodes or edges. And the color of the nodes can be defined by different categories of the mRNAs and miRNAs, such as Gene-Ontology, pathway, and expression status. Users can also select to use network degree or network betweenness centrality to define the node size. And edges can be black or colored by the correlation. Purple edge means negative correlation (mostly found between miRNA and mRNA), and blue edge means positive correlation (found in PPI or miRNA-miRNA sponge effect). We can also add the protein-protein interactions (PPI) into the network. This result will show the cluster of genes regulated by some specific miRNAs. Additionally, miRNA-miRNA edges can be added by the "miRNA sponge" button, presenting some clusters of miRNAs that have the interactions via sponge effect.

miRNA-gene regulations

(Download full result)

Num microRNA           Gene miRNA log2FC miRNA pvalue Gene log2FC Gene pvalue Interaction Correlation beta Correlation P-value PMID Reported in cancer studies
1 hsa-miR-101-3p ACSL4 0.52 0.00376 -0.41 0.0792 miRNATAP -0.14 0.02707 NA
2 hsa-miR-16-1-3p ACSL4 2.57 0 -0.41 0.0792 MirTarget -0.11 0.00539 NA
3 hsa-miR-181c-5p ACSL4 1.59 0 -0.41 0.0792 mirMAP -0.13 0.00287 NA
4 hsa-miR-26b-3p ACSL4 2.18 0 -0.41 0.0792 MirTarget -0.13 0.00384 NA
5 hsa-miR-26b-5p ACSL4 0.89 0 -0.41 0.0792 mirMAP -0.14 0.02054 NA
6 hsa-miR-3065-3p ACSL4 2.16 0 -0.41 0.0792 MirTarget; miRNATAP -0.16 0 NA
7 hsa-miR-3065-5p ACSL4 2.75 0 -0.41 0.0792 mirMAP; miRNATAP -0.11 7.0E-5 NA
8 hsa-miR-320a ACSL4 0.44 0.03902 -0.41 0.0792 miRanda -0.17 0.00139 NA
9 hsa-miR-320b ACSL4 1.56 0 -0.41 0.0792 miRanda -0.13 0.0016 NA
10 hsa-miR-34a-3p ACSL4 1.76 0 -0.41 0.0792 MirTarget -0.1 0.01388 NA
11 hsa-miR-34a-5p ACSL4 1.9 0 -0.41 0.0792 miRNAWalker2 validate; MirTarget; miRNATAP -0.13 0.00399 NA
NumGOOverlapSizeP ValueAdj. P Value
1 LIPID BIOSYNTHETIC PROCESS 9 539 6.397e-09 2.977e-05
2 THIOESTER METABOLIC PROCESS 5 83 4.352e-08 5.063e-05
3 LIPID METABOLIC PROCESS 11 1158 2.903e-08 5.063e-05
4 ACYL COA METABOLIC PROCESS 5 83 4.352e-08 5.063e-05
5 ORGANIC HYDROXY COMPOUND METABOLIC PROCESS 8 482 5.626e-08 5.236e-05
6 CELLULAR LIPID METABOLIC PROCESS 9 913 5.822e-07 0.0004515
7 FATTY ACID METABOLIC PROCESS 6 296 1.074e-06 0.0007142
8 ORGANIC HYDROXY COMPOUND BIOSYNTHETIC PROCESS 5 175 1.799e-06 0.001046
9 ALCOHOL METABOLIC PROCESS 6 348 2.746e-06 0.001408
10 NEUTRAL LIPID METABOLIC PROCESS 4 85 3.026e-06 0.001408
11 STEROID METABOLIC PROCESS 5 237 7.921e-06 0.003351
12 STEROID BIOSYNTHETIC PROCESS 4 114 9.742e-06 0.003777
13 SMALL MOLECULE BIOSYNTHETIC PROCESS 6 443 1.095e-05 0.00392
14 SINGLE ORGANISM BIOSYNTHETIC PROCESS 9 1340 1.379e-05 0.004277
15 COENZYME METABOLIC PROCESS 5 265 1.36e-05 0.004277
16 SMALL MOLECULE METABOLIC PROCESS 10 1767 1.74e-05 0.005061
17 MONOCARBOXYLIC ACID METABOLIC PROCESS 6 503 2.248e-05 0.006153
18 FATTY ACYL COA METABOLIC PROCESS 3 51 3.044e-05 0.00787
19 ACYL COA BIOSYNTHETIC PROCESS 3 54 3.618e-05 0.008416
20 THIOESTER BIOSYNTHETIC PROCESS 3 54 3.618e-05 0.008416
21 COFACTOR METABOLIC PROCESS 5 334 4.127e-05 0.009144
NumGOOverlapSizeP ValueAdj. P Value
1 ACID THIOL LIGASE ACTIVITY 3 20 1.708e-06 0.001587
2 LIGASE ACTIVITY FORMING CARBON SULFUR BONDS 3 40 1.457e-05 0.006767
NumGOOverlapSizeP ValueAdj. P Value
1 MICROBODY 6 134 9.852e-09 5.754e-06

Over-represented Pathway

NumPathwayPathviewOverlapSizeP ValueAdj. P Value
1 Peroxisome_hsa04146 5 83 4.352e-08 2.263e-06
2 ErbB_signaling_pathway_hsa04012 2 85 0.004636 0.1205
3 AMPK_signaling_pathway_hsa04152 2 121 0.009184 0.1592
4 MAPK_signaling_pathway_hsa04010 2 295 0.04836 0.4888
5 PI3K_Akt_signaling_pathway_hsa04151 2 352 0.06612 0.4888

lncRNA-mediated sponge

(Download full result)

Num lncRNA miRNAs           miRNAs count     Gene Sponge regulatory network lncRNA log2FC lncRNA pvalue Gene log2FC Gene pvalue lncRNA-gene Pearson correlation
1 RP11-175K6.1 hsa-miR-101-3p;hsa-miR-16-1-3p;hsa-miR-181c-5p;hsa-miR-26b-3p;hsa-miR-26b-5p;hsa-miR-3065-3p;hsa-miR-3065-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-34a-3p 10 ACSL4 Sponge network -2.386 0 -0.411 0.0792 0.313
2 MAGI2-AS3 hsa-miR-101-3p;hsa-miR-16-1-3p;hsa-miR-181c-5p;hsa-miR-26b-3p;hsa-miR-26b-5p;hsa-miR-3065-3p;hsa-miR-3065-5p;hsa-miR-320a;hsa-miR-320b;hsa-miR-34a-3p 10 ACSL4 Sponge network -2.414 0 -0.411 0.0792 0.263

Quest ID: 41b4a9f8c242245f52d8b942cac6b197